Merge development into main - #104

Merged

pskeshu merged 423 commits into

mainfrom

Jul 28, 2026

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Commits on Jun 17, 2026

mypy: clear gently/hardware/* type errors (#49)
subindevs
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eb2c3f3
mypy: clear gently library modules (ui, ml, eval, analysis, organisms, top-level) (#49)
subindevs
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2be3587
Move hardware-control stack into default-on device dependency group
schneidermc
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87a52c5

Commits on Jun 25, 2026

Merge pull request #61 from gently-project/device-dependency-group
pskeshu
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44d9f2b

Commits on Jun 27, 2026

Commits on Jun 28, 2026

Commits on Jun 29, 2026

Commits on Jun 30, 2026

Merge remote-tracking branch 'origin/development' into feature/temperature-operations-all
pskeshu
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e17280a
feat(devices): Map-view embryo detect + single-source-of-truth list + per-embryo Center + bottom-cam enlarge

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60b948e
docs(spec): bottom-cam→SPIM Operator surface design (sub-project A)

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6ffe1f9
feat(operate): backend — fenced Z read/nudge, agent-free marking confirm, detect candidates

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223812c
feat(operate): Operate view — guided bottom-cam → SPIM operator surface

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7a95f04
feat(operate): B — capture marking as localization labels

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d1662dd
feat(operate): C — passive focus-trace logging + offline validation

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47bb84f
feat(operate): redesign as 'The Operator Spine' — uncluttered, legible workflow

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ecfcb60
refactor(devices): remove duplicate Map-view Detect panel — Detect lives only in Operate

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522e25b
docs(spec): Operate → tactics/timelapse integration design (Phase C Run)

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7bd39ce
feat(operate): Phase C 'Run' — marking→imaging handoff (Phase 1)

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f8175b2
feat(operate): Phase 2 — Mode B emits a real tactic + tactic_id symmetry

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178f872
feat(operate): Phase 3 — Tactic Executor + library/oneshot/plan/agent modes

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030feae
fix(operate): resolve 8 confirmed code-review findings

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2d4e959

Commits on Jul 1, 2026

Merge remote-tracking branch 'upstream/feature/temperature-operations-all' into feature/temperature-operations-all
pskeshu
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765c4dd
docs(spec): settings panel — editable ACUITYnano thermalizer + config visibility

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c02d52d
feat(settings): editable ACUITYnano thermalizer + effective-config viewer

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b47ab66
fix(settings): resolve 4 confirmed thermalizer code-review findings

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1a0f129
feat(settings): Phase 2 — rig-wide dashboard defaults + restart-required editors

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eb63cbe
fix(settings): drop dead settings.py knobs from editors + group the Advanced UI

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703db32
perf(file_store): O(1) prediction_id via bounded tail read

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76c3224
docs: concurrency & runtime architecture overview

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c478a40
fix(web): quiet 503 for laser-configs/cameras when device layer is offline

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d5d2c1a
feat(web): friendly login hint when a control action is denied (403)

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fb0e13e
tooling+docs: UI crawler/simulator + living user-story & UX-flow docs

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70a048e
feat(ui_crawler): visible-run modes — headed/slow-mo, Playwright trace, video
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902c01f
feat(ui_crawler): per-finding traces (--trace-findings) + scenarios.py repro harness

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c69c7af
style(ui_crawler): split E701 one-line if/return in kind_of
pskeshu
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8e2e9cb
docs(ui_crawler): document the Playwright trace viewer (show-trace)
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7970e21
feat(ui_crawler): per-story UX audit + baseline-diff regression spine

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c0a24a6
feat(ui_crawler): agent-readable audit artifacts — PNG shots + text per story

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96ada33
feat(ui_crawler): full per-story UX audit — 36 story flows + seeded baseline

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b04e5d3
feat(ideation): product-ideation engine — entity inventory + 2 matrices + 22-lens backlog

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ed84f19
docs(ideation): Fable second-consult — thesis, deepened flagships, engine guardrails, close-the-loop upgrade

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dd36a16

Commits on Jul 2, 2026

docs(ideation): Fable entity-evolution assessment — the scientific spine + the one generalization

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7aca47e
feat(temperature): bundle ACUITYnano serial SDK in-repo

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33635d7
build(deps): move hardware-control stack into default-on `device` group

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c49e524
fix(operate): correct marking stage origin + SAM room-light fallback

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7136498
feat(operate): add per-embryo piezo-galvo calibration step

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236e940
fix(devices-map): frame marked embryos so they aren't clipped off-map

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565593c

Commits on Jul 9, 2026

fix(tools): coerce string tool args to annotated scalar types; quiet WS disconnect spam

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d846dcd

Commits on Jul 11, 2026

Commits on Jul 12, 2026

Commits on Jul 13, 2026

Commits on Jul 17, 2026

chore: add Playwright MCP server at project scope

pskeshu
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09092da
Merge pull request #88 from gently-project/chore/playwright-mcp
pskeshu
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5410d9f
Merge pull request #84 from gently-project/feature/session-replay
pskeshu
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cf57874
Merge pull request #86 from gently-project/feature/shutdown-handshake
pskeshu
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57fa6f1
Merge pull request #87 from gently-project/fix/boot-banner-hide-on-details
pskeshu
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6513c10
Merge remote-tracking branch 'origin/development' into tooling/ui-crawler-user-stories
pskeshu
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d8fec46
style(ui_crawler): ruff format the crawler + story flows

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4a2cd14
Merge pull request #76 from gently-project/tooling/ui-crawler-user-stories
pskeshu
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bd560ce
feat(devices): dynamic device-layer availability propagation (RFC #78)

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edd14a1
feat(devices): device-layer card UX — boot log, red Stop, live uptime, clean meta

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9330e5f
feat(ui): entry-screen UX — welcome theme toggle, light default, resume skips landing

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8065abe
fix(dev): serve /static with no-cache so edits reflect on reload

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b2e6cd1
fix(replay): split oversized rrweb flushes to avoid 413 data loss

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32322a6
Merge pull request #89 from gently-project/feature/dynamic-hardware-availability
pskeshu
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8cd6cda
chore: bump development to 1.0.0.dev0

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4a85c3e
Merge pull request #90 from gently-project/chore/bump-1.0.0.dev0
pskeshu
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a3bfba8
feat(replay): sustainable session recording — fidelity levels + disk bounds

pskeshu
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1d13901
Merge pull request #91 from gently-project/feature/replay-fidelity-and-disk-bounds
pskeshu
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6f1b6ff
Merge pull request #27 from ceej640/ceej/issue-9-sample-framework
pskeshu
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e22d17f
fix(agent): set _autonomous_active inside the turn-lock (reapply #33)

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4fded13
fix(tests+mesh): repair pytest collection + stale dispim expectations (reapply #23)

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adeab18
fix(ui): boot banner always dismissible + reliable ready-flash auto-dismiss

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ae6db92
chore(mcp): enable Chromium sandbox for the Playwright MCP

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a4bd8f8
Merge pull request #94 from gently-project/fix/boot-banner-dismiss-and-mcp-sandbox
pskeshu
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f90b3ab
fix(security): harden FileStore YAML loading + embryo_id paths (reapply #25)

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3e9f21d
fix(security): validate + gate array upload endpoints (reapply #24)

pskeshu
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6fce360
Merge pull request #92 from gently-project/fix/autonomous-active-lock-ordering
pskeshu
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bd5ec0d
Merge pull request #93 from gently-project/fix/test-suite-collection
pskeshu
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bf3751d
Merge pull request #95 from gently-project/fix/filestore-hardening
pskeshu
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bea0e8e
Merge pull request #96 from gently-project/fix/upload-input-hardening
pskeshu
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97b9f64
fix(ui): resuming a session no longer bounces to the launch gate

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2a2f875
Merge pull request #97 from gently-project/fix/resume-skips-launch-gate
pskeshu
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622427b
fix(ui): boot banner actually hides — the "blue dot" ghost

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f9495f0
Merge pull request #98 from gently-project/fix/boot-banner-hidden-css
pskeshu
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c76246d

Commits on Jul 18, 2026

Commits on Jul 19, 2026

ci: make mypy-strict a required gate (closes #63)

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9fb4f63
feat(ui): process console in the header — agent + device-layer output
pskeshu
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73c5a21

Commits on Jul 20, 2026

Merge pull request #99 from subindevs/63-mypy-strict-required
pskeshu
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ffacef5
feat(operate): three instrument surfaces, no workflow
pskeshu
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2d04122
docs(operate): mark the navigable-steps spec superseded
pskeshu
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5fa3351
fix(replay): assert block selectors still bind at boot
pskeshu
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3a2345a
style(stories): satisfy ruff format in US-15
pskeshu
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09933ed
docs: document the contributor workflow and the CI gates
pskeshu
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d61067a
docs: restructure CLAUDE.md around working effectively with coding agents
pskeshu
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dbc90bd
docs: drop the incident reference from the pre-commit note
pskeshu
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810ca32
docs: cut noise and a broken command from CLAUDE.md
pskeshu
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fb4cb84
docs: stop restating CI gating rules that live in lint.yml
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6f7504e
fix(operate): freeze last frame, size viewport to image, detect on last frame

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9121c56
chore(deps): reconcile uv.lock with pyproject

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28ccdcf
feat(operate): shared persistent embryo table + detect/preview fixes

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f0ccca3
feat(operate): show captured image before detection runs

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470cfb1

Commits on Jul 24, 2026

Commits on Jul 26, 2026